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Merge commit 'alpha/update_2_12_for_2_11_2_series_merge^2' into HEAD
[jalview.git]
/
test
/
jalview
/
structure
/
StructureSelectionManagerTest.java
diff --git
a/test/jalview/structure/StructureSelectionManagerTest.java
b/test/jalview/structure/StructureSelectionManagerTest.java
index
044cbc7
..
5ca2cb1
100644
(file)
--- a/
test/jalview/structure/StructureSelectionManagerTest.java
+++ b/
test/jalview/structure/StructureSelectionManagerTest.java
@@
-125,10
+125,10
@@
public class StructureSelectionManagerTest extends Jalview2xmlBase
acf3.addMap(new Sequence("s3", "ttt"), new Sequence("p3", "p"),
new MapList(new int[] { 1, 3 }, new int[] { 1, 1 }, 1, 1));
acf3.addMap(new Sequence("s3", "ttt"), new Sequence("p3", "p"),
new MapList(new int[] { 1, 3 }, new int[] { 1, 1 }, 1, 1));
- List<AlignedCodonFrame> set1 = new ArrayList<AlignedCodonFrame>();
+ List<AlignedCodonFrame> set1 = new ArrayList<>();
set1.add(acf1);
set1.add(acf2);
set1.add(acf1);
set1.add(acf2);
- List<AlignedCodonFrame> set2 = new ArrayList<AlignedCodonFrame>();
+ List<AlignedCodonFrame> set2 = new ArrayList<>();
set2.add(acf2);
set2.add(acf3);
set2.add(acf2);
set2.add(acf3);
@@
-220,7
+220,7
@@
public class StructureSelectionManagerTest extends Jalview2xmlBase
assertEquals(1, pmap.getSeqs().size());
assertEquals("4IM2|A", pmap.getSeqs().get(0).getName());
assertEquals(1, pmap.getSeqs().size());
assertEquals("4IM2|A", pmap.getSeqs().get(0).getName());
- List<int[]> structuremap1 = new ArrayList(
+ List<int[]> structuremap1 = new ArrayList<>(
sm.getMapping(P4IM2_MISSING)[0]
.getPDBResNumRanges(seq.getStart(), seq.getEnd()));
sm.getMapping(P4IM2_MISSING)[0]
.getPDBResNumRanges(seq.getStart(), seq.getEnd()));
@@
-315,8
+315,7
@@
public class StructureSelectionManagerTest extends Jalview2xmlBase
// positional mapping to atoms for color by structure is still wrong, even
// though panel looks correct.
// positional mapping to atoms for color by structure is still wrong, even
// though panel looks correct.
- StructureMappingcommandSet smcr[] = JmolCommands
- .getColourBySequenceCommand(apssm,
+ String[] smcr = new JmolCommands().colourBySequence(apssm,
new String[]
{ pdbe.getFile() },
new SequenceI[][]
new String[]
{ pdbe.getFile() },
new SequenceI[][]
@@
-324,12
+323,10
@@
public class StructureSelectionManagerTest extends Jalview2xmlBase
new SequenceRenderer(alf.alignPanel.getAlignViewport()),
alf.alignPanel);
// Expected - all residues are white
new SequenceRenderer(alf.alignPanel.getAlignViewport()),
alf.alignPanel);
// Expected - all residues are white
- for (StructureMappingcommandSet smm : smcr)
+ for (String c : smcr)
{
{
- for (String c : smm.commands)
- {
- System.out.println(c);
- }
+ assertTrue(c.contains("color[255,255,255]"));
+ System.out.println(c);
}
}
}
}